Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene22317.t1 | XP_003611009.1 | 90.2 | 82 | 5 | 1 | 3 | 81 | 10 | 91 | 5.00E-31 | 143.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene22317.t1 | Q8GV05 | 71.2 | 66 | 19 | 0 | 16 | 81 | 20 | 85 | 2.4e-21 | 102.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene22317.t1 | G7KAM1 | 90.2 | 82 | 5 | 1 | 3 | 81 | 10 | 91 | 3.6e-31 | 143.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene22317.t1 | TF | MYB-related |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene22317.t1 | MTR_5g009460 | 90.244 | 82 | 5 | 1 | 3 | 81 | 10 | 91 | 3.40e-48 | 147 |
| MS.gene22317.t1 | MTR_4g046737 | 50.000 | 66 | 33 | 0 | 9 | 74 | 8 | 73 | 8.99e-19 | 73.2 |
| MS.gene22317.t1 | MTR_2g088730 | 67.391 | 46 | 15 | 0 | 27 | 72 | 32 | 77 | 3.29e-18 | 72.0 |
| MS.gene22317.t1 | MTR_2g023100 | 39.189 | 74 | 45 | 0 | 1 | 74 | 1 | 74 | 1.51e-15 | 65.1 |
| MS.gene22317.t1 | MTR_4g100720 | 56.410 | 39 | 17 | 0 | 29 | 67 | 71 | 109 | 3.34e-11 | 56.2 |
| MS.gene22317.t1 | MTR_0247s0040 | 50.000 | 40 | 20 | 0 | 28 | 67 | 64 | 103 | 9.85e-11 | 55.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene22317.t1 | AT2G30420 | 72.727 | 66 | 18 | 0 | 16 | 81 | 27 | 92 | 4.11e-31 | 105 |
| MS.gene22317.t1 | AT5G53200 | 71.212 | 66 | 19 | 0 | 16 | 81 | 20 | 85 | 4.21e-31 | 105 |
| MS.gene22317.t1 | AT2G46410 | 60.000 | 80 | 32 | 0 | 1 | 80 | 10 | 89 | 1.76e-30 | 103 |
| MS.gene22317.t1 | AT2G30432 | 66.667 | 66 | 22 | 0 | 13 | 78 | 19 | 84 | 4.43e-28 | 97.1 |
| MS.gene22317.t1 | AT2G30424 | 58.904 | 73 | 30 | 0 | 9 | 81 | 16 | 88 | 1.17e-26 | 94.0 |
| MS.gene22317.t1 | AT4G01060 | 61.765 | 68 | 26 | 0 | 4 | 71 | 7 | 74 | 1.30e-25 | 90.5 |
| MS.gene22317.t1 | AT4G01060 | 60.000 | 70 | 28 | 0 | 2 | 71 | 8 | 77 | 1.75e-25 | 90.1 |
| MS.gene22317.t1 | AT1G01380 | 75.556 | 45 | 11 | 0 | 27 | 71 | 32 | 76 | 1.76e-20 | 77.8 |
| MS.gene22317.t1 | AT4G01060 | 69.565 | 46 | 14 | 0 | 26 | 71 | 30 | 75 | 1.30e-19 | 75.1 |
| MS.gene22317.t1 | AT5G52600 | 58.974 | 39 | 16 | 0 | 29 | 67 | 70 | 108 | 8.79e-12 | 58.2 |
Find 18 sgRNAs with CRISPR-Local
Find 49 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTATCTTCACTTCTTTCTTT+TGG | 0.236926 | 5.4:+4098719 | None:intergenic |
| CGGAGGTTTGACTTGTGTTT+CGG | 0.239671 | 5.4:+4099646 | None:intergenic |
| CAGAAGAAATAGAGAGATTC+TGG | 0.240435 | 5.4:-4098770 | MS.gene22317:CDS |
| GGAGGTTTGACTTGTGTTTC+GGG | 0.242590 | 5.4:+4099647 | None:intergenic |
| TTGATAGCAGGTCGCATTCC+TGG | 0.360830 | 5.4:-4098801 | MS.gene22317:CDS |
| ATAAAATATGGAAGAAACTA+AGG | 0.456231 | 5.4:-4099679 | None:intergenic |
| TGTACGACCTAGTTGGAGAT+AGG | 0.497484 | 5.4:-4099391 | MS.gene22317:intron |
| AGCAGGTGGAATTTGATAGC+AGG | 0.532686 | 5.4:-4098813 | MS.gene22317:intron |
| CGCAGGATGTACGACCTAGT+TGG | 0.536525 | 5.4:-4099398 | MS.gene22317:CDS |
| CAGAAGTGAGCAGCACTGAG+TGG | 0.541606 | 5.4:-4099460 | MS.gene22317:CDS |
| ATTTCTTCTGCTTTACGACC+AGG | 0.542074 | 5.4:+4098783 | None:intergenic |
| AGAAGTGAGCAGCACTGAGT+GGG | 0.563793 | 5.4:-4099459 | MS.gene22317:CDS |
| CATAGAGATGAGCGAGCAAG+AGG | 0.568119 | 5.4:-4099432 | MS.gene22317:CDS |
| AAGAGGAGGATCTCATTCGC+AGG | 0.581290 | 5.4:-4099415 | MS.gene22317:CDS |
| AGAGATGAGCGAGCAAGAGG+AGG | 0.612798 | 5.4:-4099429 | MS.gene22317:CDS |
| AGATTAGAAACCACCTTCGG+AGG | 0.612968 | 5.4:+4099629 | None:intergenic |
| TTAATTACCTATCTCCAACT+AGG | 0.634724 | 5.4:+4099384 | None:intergenic |
| AACACAAGTCAAACCTCCGA+AGG | 0.653483 | 5.4:-4099642 | MS.gene22317:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAGCAATAGAGAAAATAA+TGG | + | chr5.4:4098829-4098848 | None:intergenic | 20.0% |
| !! | AAACATTAAATACTAGTATG+AGG | + | chr5.4:4098892-4098911 | None:intergenic | 20.0% |
| !! | TAATCTTATATTATTGTGTC+CGG | + | chr5.4:4099410-4099429 | None:intergenic | 20.0% |
| !! | TATGATACTAATTGAATGTT+TGG | + | chr5.4:4099274-4099293 | None:intergenic | 20.0% |
| !!! | CATATAAGCTTTTATATGAA+AGG | - | chr5.4:4099535-4099554 | MS.gene22317:intron | 20.0% |
| ! | ATATGCTAAAAAGTAAACAC+CGG | - | chr5.4:4099388-4099407 | MS.gene22317:intron | 25.0% |
| ! | GTTAGTTAATTCTAACAACT+TGG | + | chr5.4:4099307-4099326 | None:intergenic | 25.0% |
| !! | TACAGACAAAGTATTATACA+TGG | + | chr5.4:4099039-4099058 | None:intergenic | 25.0% |
| !!! | TCTTTAAGTTGTATGATGTT+TGG | - | chr5.4:4099466-4099485 | MS.gene22317:intron | 25.0% |
| AAAAAAACCTCAAACGTCAA+AGG | + | chr5.4:4099064-4099083 | None:intergenic | 30.0% | |
| AGAGAAAATAATGGCATGTT+GGG | + | chr5.4:4098820-4098839 | None:intergenic | 30.0% | |
| ATAGAAAAACTGTGATTGTG+AGG | - | chr5.4:4099340-4099359 | MS.gene22317:intron | 30.0% | |
| TAGAGAAAATAATGGCATGT+TGG | + | chr5.4:4098821-4098840 | None:intergenic | 30.0% | |
| TTAATTACCTATCTCCAACT+AGG | + | chr5.4:4099016-4099035 | None:intergenic | 30.0% | |
| ! | ATTCTAACAACTTGGTCTTT+AGG | + | chr5.4:4099299-4099318 | None:intergenic | 30.0% |
| ! | TTAAGTTGTATGATGTTTGG+TGG | - | chr5.4:4099469-4099488 | MS.gene22317:intron | 30.0% |
| !! | TAAGAAGCTTTGACGTTTTA+AGG | - | chr5.4:4099092-4099111 | MS.gene22317:intron | 30.0% |
| AGAAAATAATGGCATGTTGG+GGG | + | chr5.4:4098818-4098837 | None:intergenic | 35.0% | |
| CAGAAGAAATAGAGAGATTC+TGG | - | chr5.4:4099627-4099646 | MS.gene22317:intron | 35.0% | |
| GAGAAAATAATGGCATGTTG+GGG | + | chr5.4:4098819-4098838 | None:intergenic | 35.0% | |
| TACAGTTATAAAGAAGCCGA+GGG | - | chr5.4:4099148-4099167 | MS.gene22317:intron | 35.0% | |
| ATTTCTTCTGCTTTACGACC+AGG | + | chr5.4:4099617-4099636 | None:intergenic | 40.0% | |
| CTACAGTTATAAAGAAGCCG+AGG | - | chr5.4:4099147-4099166 | MS.gene22317:intron | 40.0% | |
| CTGTATTCCTTTGACGTTTG+AGG | - | chr5.4:4099054-4099073 | MS.gene22317:intron | 40.0% | |
| GGTAGATTAGAAACCACCTT+CGG | + | chr5.4:4098774-4098793 | None:intergenic | 40.0% | |
| AAATAATGGCATGTTGGGGG+TGG | + | chr5.4:4098815-4098834 | None:intergenic | 45.0% | |
| AACACAAGTCAAACCTCCGA+AGG | - | chr5.4:4098755-4098774 | MS.gene22317:CDS | 45.0% | |
| AATAATGGCATGTTGGGGGT+GGG | + | chr5.4:4098814-4098833 | None:intergenic | 45.0% | |
| AGATTAGAAACCACCTTCGG+AGG | + | chr5.4:4098771-4098790 | None:intergenic | 45.0% | |
| CCGAGGGTTTCTCAAAATCA+CGG | - | chr5.4:4099164-4099183 | MS.gene22317:intron | 45.0% | |
| TAGAAACTACACAACGCAGC+AGG | - | chr5.4:4099567-4099586 | MS.gene22317:intron | 45.0% | |
| TGTACGACCTAGTTGGAGAT+AGG | - | chr5.4:4099006-4099025 | MS.gene22317:intron | 45.0% | |
| ! | AGCAGGTGGAATTTGATAGC+AGG | - | chr5.4:4099584-4099603 | MS.gene22317:intron | 45.0% |
| !! | CCGTGATTTTGAGAAACCCT+CGG | + | chr5.4:4099167-4099186 | None:intergenic | 45.0% |
| !! | CGGAGGTTTGACTTGTGTTT+CGG | + | chr5.4:4098754-4098773 | None:intergenic | 45.0% |
| !! | GGAGGTTTGACTTGTGTTTC+GGG | + | chr5.4:4098753-4098772 | None:intergenic | 45.0% |
| AAACTACACAACGCAGCAGG+TGG | - | chr5.4:4099570-4099589 | MS.gene22317:intron | 50.0% | |
| AAGAGGAGGATCTCATTCGC+AGG | - | chr5.4:4098982-4099001 | MS.gene22317:intron | 50.0% | |
| ACAAGTCAAACCTCCGAAGG+TGG | - | chr5.4:4098758-4098777 | MS.gene22317:CDS | 50.0% | |
| CATAGAGATGAGCGAGCAAG+AGG | - | chr5.4:4098965-4098984 | MS.gene22317:intron | 50.0% | |
| ! | AGAAGTGAGCAGCACTGAGT+GGG | - | chr5.4:4098938-4098957 | MS.gene22317:intron | 50.0% |
| ! | TTGATAGCAGGTCGCATTCC+TGG | - | chr5.4:4099596-4099615 | MS.gene22317:intron | 50.0% |
| AGAGATGAGCGAGCAAGAGG+AGG | - | chr5.4:4098968-4098987 | MS.gene22317:intron | 55.0% | |
| CGCAGGATGTACGACCTAGT+TGG | - | chr5.4:4098999-4099018 | MS.gene22317:intron | 55.0% | |
| GGTGGGTGTGTGTGTGTGTT+GGG | + | chr5.4:4098797-4098816 | None:intergenic | 55.0% | |
| GTGGGTGTGTGTGTGTGTTG+GGG | + | chr5.4:4098796-4098815 | None:intergenic | 55.0% | |
| TGGGTGTGTGTGTGTGTTGG+GGG | + | chr5.4:4098795-4098814 | None:intergenic | 55.0% | |
| ! | CAGAAGTGAGCAGCACTGAG+TGG | - | chr5.4:4098937-4098956 | MS.gene22317:intron | 55.0% |
| GGGTGGGTGTGTGTGTGTGT+TGG | + | chr5.4:4098798-4098817 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.4 | gene | 4098725 | 4099694 | 4098725 | ID=MS.gene22317 |
| chr5.4 | mRNA | 4098725 | 4099694 | 4098725 | ID=MS.gene22317.t1;Parent=MS.gene22317 |
| chr5.4 | exon | 4099643 | 4099694 | 4099643 | ID=MS.gene22317.t1.exon1;Parent=MS.gene22317.t1 |
| chr5.4 | CDS | 4099643 | 4099694 | 4099643 | ID=cds.MS.gene22317.t1;Parent=MS.gene22317.t1 |
| chr5.4 | exon | 4099392 | 4099479 | 4099392 | ID=MS.gene22317.t1.exon2;Parent=MS.gene22317.t1 |
| chr5.4 | CDS | 4099392 | 4099479 | 4099392 | ID=cds.MS.gene22317.t1;Parent=MS.gene22317.t1 |
| chr5.4 | exon | 4098725 | 4098830 | 4098725 | ID=MS.gene22317.t1.exon3;Parent=MS.gene22317.t1 |
| chr5.4 | CDS | 4098725 | 4098830 | 4098725 | ID=cds.MS.gene22317.t1;Parent=MS.gene22317.t1 |
| Gene Sequence |
| Protein sequence |
